Locus 9095

Sequence ID	3R_DroMel_CAF1
Location	24,274,949 – 24,275,049
Length	100
Max. P	0.940709

overview

Window 7

Location	24,274,949 – 24,275,049
Length	100
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	78.25
Mean single sequence MFE	-31.49
Consensus MFE	-18.66
Energy contribution	-19.22
Covariance contribution	0.56
Combinations/Pair	1.11
Mean z-score	-2.29
Structure conservation index	0.59
SVM decision value	1.31
SVM RNA-class probability	0.940709
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24274949 100 + 27905053
UGGUAUUGUUGCCGUGAAGUUGAGCUGUGUUAAUGAAAUGCGUU----UGGGUUUUUUAGCUGGCACAAAGCGCAACUUGCAGCUUGCAACAAGC-AACG-------UGCAA
.((((....))))...((((((.(((((((((.(((((.((...----...)).)))))..))))))..))).))))))(((..((((.....))-))..-------))).. ( -29.50)
>DroVir_CAF1 74237 103 + 1
UGCCAUUGUUGUGCUGAAGUUGCGCUGUGUUAAUGAAAUGCGUUGCAUUCGGAUUUUUAGCUGGCACAAAAC--AACUUGCAACUUGCAACUUGCCAGCU-------UGCAG
(((..........(((((((.((((..............)))).)).)))))......((((((((......--...((((.....))))..))))))))-------.))). ( -26.54)
>DroPse_CAF1 101131 88 + 1
UGCUAUUGUUGCCGCGAAGUUGAGCUGUGUUAAUGAAAUGCGUU---UUGGGUUUUUUAGCUGGCACAAAGCGCAACUUGCGGC--------AGC-CACG------------
.......((((((((.((((((.(((((((((.(((((.((...---....)).)))))..))))))..))).)))))))))))--------)))-....------------ ( -34.10)
>DroYak_CAF1 102003 107 + 1
UGGUAUUGUUGCCGUGAAGUUGAGCUGUGUUAAUGAAAUGCGUU----GGGGUUUUUUAGCUGGCACAAAGCUCAACUUGCUGCUUGCAACAAGC-AACGUGCAACGUGCAA
..((((.((((((((.((((((((((((((((.(((((.((...----...)).)))))..))))))..))))))))))..((((((...)))))-)))).))))))))).. ( -40.90)
>DroAna_CAF1 95124 86 + 1
UGCCAUUGUUGCCGUGAAGUUGAGCUGUGUUAAUGAAAUGCGUU----UGGGUUUUUUAGCUGGCACAAAGCGCAACUUGGAGCUUGG----------------------AA
..(((..(((.(((...(((((.(((((((((.(((((.((...----...)).)))))..))))))..))).))))))))))).)))----------------------.. ( -23.80)
>DroPer_CAF1 101005 88 + 1
UGCUAUUGUUGCCGCGAAGUUGAGCUGUGUUAAUGAAAUGCGUU---UUGGGUUUUUUAGCUGGCACAAAGCGCAACUUGCGGC--------AGC-CACG------------
.......((((((((.((((((.(((((((((.(((((.((...---....)).)))))..))))))..))).)))))))))))--------)))-....------------ ( -34.10)
>consensus
UGCUAUUGUUGCCGUGAAGUUGAGCUGUGUUAAUGAAAUGCGUU____UGGGUUUUUUAGCUGGCACAAAGCGCAACUUGCAGCUUGC____AGC_AACG__________AA
.......(((((....((((((.(((((((((.(((((.((.(......).)).)))))..)))))))..)).)))))))))))............................ (-18.66 = -19.22 +   0.56)

alignment

secondary structure

dotplot

Window 8

Location	24,274,949 – 24,275,049
Length	100
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	78.25
Mean single sequence MFE	-23.51
Consensus MFE	-12.21
Energy contribution	-12.52
Covariance contribution	0.31
Combinations/Pair	1.20
Mean z-score	-2.17
Structure conservation index	0.52
SVM decision value	0.71
SVM RNA-class probability	0.828810
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24274949 100 - 27905053
UUGCA-------CGUU-GCUUGUUGCAAGCUGCAAGUUGCGCUUUGUGCCAGCUAAAAAACCCA----AACGCAUUUCAUUAACACAGCUCAACUUCACGGCAACAAUACCA
..((.-------....-))(((((((....((.((((((.(((.(((.................----..............))).))).))))))))..)))))))..... ( -20.68)
>DroVir_CAF1 74237 103 - 1
CUGCA-------AGCUGGCAAGUUGCAAGUUGCAAGUU--GUUUUGUGCCAGCUAAAAAUCCGAAUGCAACGCAUUUCAUUAACACAGCGCAACUUCAGCACAACAAUGGCA
.(((.-------((((((((....((((.(....).))--))....))))))))........((((((...))))))............)))......((.((....)))). ( -25.60)
>DroPse_CAF1 101131 88 - 1
------------CGUG-GCU--------GCCGCAAGUUGCGCUUUGUGCCAGCUAAAAAACCCAA---AACGCAUUUCAUUAACACAGCUCAACUUCGCGGCAACAAUAGCA
------------.((.-(.(--------(((((((((((.(((.(((..................---..............))).))).)))))).)))))).)....)). ( -24.45)
>DroYak_CAF1 102003 107 - 1
UUGCACGUUGCACGUU-GCUUGUUGCAAGCAGCAAGUUGAGCUUUGUGCCAGCUAAAAAACCCC----AACGCAUUUCAUUAACACAGCUCAACUUCACGGCAACAAUACCA
......(((((..(((-(((((...))))))))((((((((((.(((.................----..............))).))))))))))....)))))....... ( -32.08)
>DroAna_CAF1 95124 86 - 1
UU----------------------CCAAGCUCCAAGUUGCGCUUUGUGCCAGCUAAAAAACCCA----AACGCAUUUCAUUAACACAGCUCAACUUCACGGCAACAAUGGCA
..----------------------....(((..((((((.(((.(((.................----..............))).))).))))))...(....)...))). ( -13.78)
>DroPer_CAF1 101005 88 - 1
------------CGUG-GCU--------GCCGCAAGUUGCGCUUUGUGCCAGCUAAAAAACCCAA---AACGCAUUUCAUUAACACAGCUCAACUUCGCGGCAACAAUAGCA
------------.((.-(.(--------(((((((((((.(((.(((..................---..............))).))).)))))).)))))).)....)). ( -24.45)
>consensus
UU__________CGUU_GCU____GCAAGCUGCAAGUUGCGCUUUGUGCCAGCUAAAAAACCCA____AACGCAUUUCAUUAACACAGCUCAACUUCACGGCAACAAUAGCA
............................((((..(((((.(((.(((...................................))).))).)))))...)))).......... (-12.21 = -12.52 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:29 2006